MzQCrunQuality

MzQCrunQuality-class

<p>The object is an alias for MzQCbaseQuality.</p>

Reads, writes and validates 'mzQC' files. The 'mzQC' format is a
standardized file format for the exchange, transmission, and archiving of
quality metrics derived from biological mass spectrometry data, as defined
by the HUPO-PSI (Human Proteome Organisation - Proteomics Standards Initiative)
Quality Control working group.
See <https://hupo-psi.github.io/mzQC/> for details.

Chris Bielow

rmzqc

Creation, Reading and Validation of 'mzqc' Files

David Jimenez-Morales

Jeremi Maciejewski

MzQCrunQuality function

<p><code>rmzqc::MzQCbaseQuality</code> -&gt; <code>MzQCrunQuality</code></p>

Super class


<div class="section" id="public-methods">
<h3>Public methods</h3><p></p><p><ul>
<li><p><a href="/link/MzQCrunQuality%24clone()?package=rmzqc&version=0.7.0" data-mini-rdoc="rmzqc::MzQCrunQuality$clone()"><code>MzQCrunQuality$clone()</code></a></p></li>
</ul></p><p></p></div><p><details open><summary>Inherited methods</summary>
<ul>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="fromData"><a href="/link/rmzqc%3A%3AMzQCbaseQuality%24fromData()?package=rmzqc&version=0.7.0" data-mini-rdoc="rmzqc::rmzqc::MzQCbaseQuality$fromData()"><code>rmzqc::MzQCbaseQuality$fromData()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="getMetric"><a href="/link/rmzqc%3A%3AMzQCbaseQuality%24getMetric()?package=rmzqc&version=0.7.0" data-mini-rdoc="rmzqc::rmzqc::MzQCbaseQuality$getMetric()"><code>rmzqc::MzQCbaseQuality$getMetric()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="initialize"><a href="/link/rmzqc%3A%3AMzQCbaseQuality%24initialize()?package=rmzqc&version=0.7.0" data-mini-rdoc="rmzqc::rmzqc::MzQCbaseQuality$initialize()"><code>rmzqc::MzQCbaseQuality$initialize()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="isValid"><a href="/link/rmzqc%3A%3AMzQCbaseQuality%24isValid()?package=rmzqc&version=0.7.0" data-mini-rdoc="rmzqc::rmzqc::MzQCbaseQuality$isValid()"><code>rmzqc::MzQCbaseQuality$isValid()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="toJSON"><a href="/link/rmzqc%3A%3AMzQCbaseQuality%24toJSON()?package=rmzqc&version=0.7.0" data-mini-rdoc="rmzqc::rmzqc::MzQCbaseQuality$toJSON()"><code>rmzqc::MzQCbaseQuality$toJSON()</code></a></span></li>
</ul>
</details></p><p><hr>
<a id="method-MzQCrunQuality-clone"></a></p><div class="section" id="method-clone-">
<h3>Method <code>clone()</code></h3>
<p>The objects of this class are cloneable with this method.</p><div class="section" id="usage">
<h4>Usage</h4>
<p><div class="r"></div></p><pre><code>MzQCrunQuality$clone(deep = FALSE)</code></pre><p></p></div><p></p>
</div><p></p><p><div class="section" id="arguments">
<h4>Arguments</h4>
<p><div class="arguments"></div></p><dl>
<dt><code>deep</code></dt>
<dd><p>Whether to make a deep clone.</p></dd></dl></div></p><p>
</p><p></p>
<p></p><p>
</p>

Methods

A runQuality object. Use to report metrics for individual runs which are independent of other runs. — MzQCrunQuality


<div class='section' id='public-methods'>
<h3>Public methods</h3>

<ul>
<li><p><a href='#method-MzQCrunQuality-clone'><code>MzQCrunQuality$clone()</code></a></p></li>
</ul>

</div><p><details open><summary>Inherited methods</summary>
<ul>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="fromData"><a href='../../rmzqc/html/MzQCbaseQuality.html#method-MzQCbaseQuality-fromData'><code>rmzqc::MzQCbaseQuality$fromData()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="getMetric"><a href='../../rmzqc/html/MzQCbaseQuality.html#method-MzQCbaseQuality-getMetric'><code>rmzqc::MzQCbaseQuality$getMetric()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="initialize"><a href='../../rmzqc/html/MzQCbaseQuality.html#method-MzQCbaseQuality-initialize'><code>rmzqc::MzQCbaseQuality$initialize()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="isValid"><a href='../../rmzqc/html/MzQCbaseQuality.html#method-MzQCbaseQuality-isValid'><code>rmzqc::MzQCbaseQuality$isValid()</code></a></span></li>
<li><span class="pkg-link" data-pkg="rmzqc" data-topic="MzQCbaseQuality" data-id="toJSON"><a href='../../rmzqc/html/MzQCbaseQuality.html#method-MzQCbaseQuality-toJSON'><code>rmzqc::MzQCbaseQuality$toJSON()</code></a></span></li>
</ul>
</details>

<hr>
<a id="method-MzQCrunQuality-clone"></a></p><div class='section' id='method-clone-'>
<h3>Method <code>clone()</code></h3>
<p>The objects of this class are cloneable with this method.</p><div class='section' id='usage'>
<h4>Usage</h4>
<p><div class="r"></p><pre><code>MzQCrunQuality$clone(deep = FALSE)</code></pre><p></div></p>
</div>

<div class='section' id='arguments'>
<h4>Arguments</h4>
<p><div class="arguments"></p><dl>
<dt><code>deep</code></dt>
<dd><p>Whether to make a deep clone.</p></dd>


</dl><p></div></p>
</div>

</div>


MzQCrunQuality: A runQuality object. Use to report metrics for individual runs which are independent of other runs.

Description

Arguments

Super class

Methods

Public methods

Method `clone()`

Usage

Arguments

Description

Arguments

Super class

Methods

Public methods

Method clone()

Usage

Arguments

Method `clone()`